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Thanks Fraklin and Aia,

It works, I will try to understand the logic of doing these tasks in the future.

Hi Shilpi,

the output from your code is



I am looking for something else.

But thanks, it might be useful for other problems.

Hi,

I have a file with contents



So what I have to do is


In short, break the file after every 6 lines and then truncate new line to tab for these 6 lines.
I am not able to execute the...

Hi rabtte1

The code from Scrutinizer works for the problem I posted.
Yes there are more lines in the file, but I want the number just from the 2nd line.
I want the number before the |...

Thanks!!!
The code works fro this problem.
Can you help in solving this issue
suppose the file name is
abc7634.txt
def87.txt
kslkd836990.txt
Assuming that kslkd has 12 inside the file

I...

Hi,

I have a folder that contains files

abc.txt
def.txt
....and so on

Inside abc.txt, I have @<TRIPOS>MOLECULE...

Sorry, I missed it so took it out from the thread now

---------- Post updated at 12:56 PM ---------- Previous update was at 11:53 AM ----------

Thanks RudiC,

The code for the second problem...

HI RudiC,

I have edit the tags.

The 3rd last line is printed like that because now there isn't anything matching in file 1 and file to so the unmatched things are being printed side by side....

HI,

I have 2 different questions in this thread.
Consider 2 files as input (input file have different line count )
File 1
1 1 625 56
1 12 657 34
1 9 25 45 1
2 20 54 67
3 25 35 27
4 45 73...

You are right Scrutinizer.
I am bad in posting the file format as I always get confused how to do it properly here. Next time, I will do it more carefully.

But the last script from you works...

Hi Rudy,

Yes, that's the thing what I want to achieve in the task.

Hi

I understand now from the comments what i=4 does in this example.

But what if I don't know the exact positions of the columns which has 0 0 in the 1000 column file. Let's suppose an example,...

Hi

Sorry, the example has 5 columns.
Lets's take the 1st row
There is a space between A A, tab 0 0, tab G G, tab 0 0, tab T T.
Column three won't always be retained.

---------- Post...

Suppose I have a file which has 1000 columns (5 SHOWN FOR EXAMPLE)
two alphabets are separated by a space and then tab
A A"\t"C C"\t"G G"\t"0 0"\t"T T
A G"\t"C C"\t"G G"\t"A T"\t"0 0
G A"\t"0...

MAybe it's more clear now

---------- Post updated at 09:18 PM ---------- Previous update was at 09:15 PM ----------

In a folder there is a1.txt, b2.txt, c3.txt....

Inside a1.txt :
id :...

Hi,

I want to pick the name of the new file from id. So here the id is 1402_3853 and therefore the file name should be 1402_3853.can.txt..

So I want a file named $id.can.txt that has one...

Hi,

From a folder which contains like 250 *.txt files, I want to do egrep -i "can't|cannot|CANCELLED". for all the files and then save each file that can't run as $id.can.txt

Example of the...

HI all,

I solved the problem in a different

from collections import defaultdict
import sys

d = defaultdict(list)

with open (sys.argv[1]) as f:
for line in f:
...

My data is like this :

chr12 21007916 21377807 369.89 -3.12 RP11-125O5.2
chr12 21007916 21377807 369.89 -3.12 SLCO1B1
chr12 21007916 21377807 ...

Hi Wisecarcker :

I want to convert the whole column into int. all alphanumerical characters in string.

Python version 2.7
OS linux

result=`echo $string | egrep -o "[0,9]{1,5}"`

Hi,

I have column 5 in a file which contains string like this for ex.

RP11-125O5.2
SLCO1B1
CAPN1
FRMPD2
TXNL4B

So I do by

data = [map(int,cols[5])]
ValueError: invalid literal for...

Thanks for the reply. But what if I have more than 100 files and the length of name is suppose 50 characters(includes the path).

---------- Post updated at 04:25 PM ---------- Previous update was...

Tried the solution which you suggested
var1=1a
var2=2b
var3=3c
out='mktemp -p /scratch/ccg-ngs/tmp/vishal/tmp/ ${var1}XXXX || exit1'
cat_out='mktemp -p /scratch/ccg-ngs/tmp/vishal/tmp/...